pre-miRNA Information | |
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pre-miRNA | hsa-mir-4457 |
Genomic Coordinates | chr5: 1309310 - 1309377 |
Description | Homo sapiens miR-4457 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | ||||||||||||||||||||||
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Mature miRNA | hsa-miR-4457 | |||||||||||||||||||||
Sequence | 43| UCACAAGGUAUUGACUGGCGUA |64 | |||||||||||||||||||||
Evidence | Experimental | |||||||||||||||||||||
Experiments | Illumina | |||||||||||||||||||||
SNPs in miRNA |
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Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | DIP2A | ||||||||||||||||||||
Synonyms | C21orf106, DIP2 | ||||||||||||||||||||
Description | disco interacting protein 2 homolog A | ||||||||||||||||||||
Transcript | NM_001146116 | ||||||||||||||||||||
Other Transcripts | NM_001146115 , NM_015151 , NM_206889 , NM_206890 , NM_206891 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on DIP2A | |||||||||||||||||||||
3'UTR of DIP2A (miRNA target sites are highlighted) |
>DIP2A|NM_001146116|3'UTR 1 GCGCAGCACACCGGCCCAGGTGCCGGAGATGAATGAGCCCCAGCAGTCCAAGGTGTGATGTGGGAAGACACCGCAGAGCT 81 CACTCACCGGGACTCGCCCTTCCTGTGCTCTTACAGATCCCTCTCAACAATCCCCGCATCTCCTTTTAGAAAGCACTTCC 161 TGAATTATTTAAAGAAATATTTTGAATCTGCCAAGTACATTTACAAAAACACGGATGCTGGTATTTTAACAGATGGAGAG 241 ACAAGGAAAGGAAAGGAAAGGCCTGGCATGGGCATTGTGAGGAATCACAGGCACCGAGGTTGTTCTCTGCTGTACTGCAA 321 GTTTGCACTTTCTTTAGGCTAAAAATATAGTTCCTGATTTTTAAAATTCAGTTATTTATTCCCACTTCAAATGACAAGTT 401 CATATATAGAATTTACGGGAGAAACTTGAGACCATTTACGGGGAGAAACTTGATTCTGGGAAGATAGCAGAGTACAAACC 481 AGCTGCCTCACTTCTGTTTCACAGGGAGGCTGATGGAAAAAGGAAGCAAGCTGGACCCATCCTCCCTGCTCACAGAGGGC 561 ACTGTGGTCACACACAGTGCCTCCTCTGCCAGTTCCTTTATTGAAAGAGGTGTGCTGGCTGGCCACGGTGGCTTACACCT 641 GTAATCCCAGCACTTTGGGAGGCCGAGGCGAGCAGATCACGAGGTCAGGAGACCGAGACCATCCTGGCTAACATGGTGAA 721 ACCCTGTCTCTACTAAAAATACAAAAAATTAGCCGGGTGTGGTGGTGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGA 801 GGCAGGAGAATGGTATGAACCAGGGAGGCGGAGCTTGCAGTGAGCCGAGATCACGCTACTGCACTCCAGCCTGGGTGACA 881 GCACGAGATGCCGTCTTAAAAAAACAAAAAAGAGGTGTGCTGCTTGTCAGCATGTATTGTCACGGACACTCAATAAGTGC 961 CATTTTGGACTGTCAAATTTAGATGCTTTGTTTCAGAAAGATAAGCCAGCATTTAGTTTTAAATCACTTTCCTGGTTTGT 1041 AACTTGATGCTGTTTAGTTAAATTGCTAGTTTTCCTAACACTACAATATTAATTCTTCTCGTGGAAGTGTACTGATTTAT 1121 TATTTTTATTCCAAGTCAGCAGATTTGGAAGCATTGTGGTAAAGTCTAAGGTTTTCATATCCATAGTGCTGTTTGGTGAG 1201 TACCGGCAGTACAGTTGAGGGGAGCAGGGAACAGCATTGCCCCGTATTGAAGGTGGAGATGGTTACATTCTTCACTGCTT 1281 TTTGCATTTTGAGTTGTGTGCCTATAAAATTTGGCCAAACCATTTTATTATTTTGTTCAAACTTGACTAAGCTGAGTGAT 1361 CTAAAATTATACAGAACCTAAATCAAAGAAGAGAATGTAAAGTCCTTTAGTTACTTCTAAGAATTTGAAGTCAAGCACGA 1441 ATCTAAGACATAGATTATTTTTATATAGCTAATGAAGAGTATGTTACGAAATTGTTGGGTTTTTGGGGTATTGAGGGTGG 1521 CAAATTTTGTGAATCATGCATGCTTCACAGAAACAACCAGGTTTTTCCAGAATTAGTCTGGATCAGTGCCTAACAAAGCT 1601 GTTATTAATTCTCCACACATGAGTCTGGCTAACTGGGCCAGCTCTCATGTTTTACTCCTGTCTGGCTACAAATAGCACTG 1681 TGCATAGTAGCCCTGTTTCCCCATGGTGTTGGACTGTGGTAAAGTATGTTGTGACATACTGGAATTCTAATAATCCTGTT 1761 GTAAGTATGTACAGAATCTATGTAACTTATTGTTGACATACAGAGGTTTGGGAAGTAGTCTAATGGACATTCCTTACAAT 1841 AGAATGGCTGGGAAGGGAAAGAAAAAAAAAAAAAAACTACCTAACTCCAATCTTAATGTTGTAGTTTTATAGCAAACAAA 1921 AATTGTCAGCTTTTTGTATTGAAAGGTCAGTGGTGGTAAGACAAGGTGTCTTGTAAATTAAGATTTTAAGAAGTGCATTA 2001 AAATGTTTTAGAATTACTCTGGGAATTCTGTATATCACACTAAAATTTTTATATCATTATGTTAATAAAAGTTATTGACT 2081 TTGTAATTCTGCATTTTGAAATGTGTGAAAAGGGTCTTTAAATTACCCCGAATAGGTTGTATCTTATTTTGCTTTTTTTC 2161 TGACTATAAAAGCAGTTATGCTTATAGCATAAAATCTAGAAAGCACATTAAAGTATAAAGAAAATTAAAATTTCTTATAA 2241 TTCTACCTCTGAGTAAACAGCAGCATTCGTATGTAACATAAACCCTCTCAGGGATTTATTTTTTCTTTTTAAAAATTTTT 2321 TACAAAATTAGGATCAAGTGCTTTTTTAAATAATTTGCTTTTGTACTTAATAAATTATAGACTTTAAAATC Target sites
Provided by authors
Predicted by miRanda
DRVs
SNPs
DRVs & SNPs
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miRNA-target interactions (Predicted by miRanda) |
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DRVs in gene 3'UTRs | |||||||||||||||||||||
SNPs in gene 3'UTRs |
Experimental Support 1 for Functional miRNA-Target Interaction | |||||||
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miRNA:Target | ---- | ||||||
Validation Method |
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Conditions | HEK293/HeLa | ||||||
Location of target site | 3'UTR | ||||||
Tools used in this research | TargetScan , miRTarCLIP , Piranha | ||||||
Original Description (Extracted from the article) |
...
HITS-CLIP data was present in GSM1067870. RNA binding protein: AGO2. Condition:Ago2 IP-seq (mitotic cells)
... - Kishore S; Gruber AR; Jedlinski DJ; Syed et al., 2013, Genome biology. |
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miRNA-target interactions (Provided by authors) |
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Article |
- Kishore S; Gruber AR; Jedlinski DJ; Syed et al. - Genome biology, 2013
BACKGROUND: In recent years, a variety of small RNAs derived from other RNAs with well-known functions such as tRNAs and snoRNAs, have been identified. The functional relevance of these RNAs is largely unknown. To gain insight into the complexity of snoRNA processing and the functional relevance of snoRNA-derived small RNAs, we sequence long and short RNAs, small RNAs that co-precipitate with the Argonaute 2 protein and RNA fragments obtained in photoreactive nucleotide-enhanced crosslinking and immunoprecipitation (PAR-CLIP) of core snoRNA-associated proteins. RESULTS: Analysis of these data sets reveals that many loci in the human genome reproducibly give rise to C/D box-like snoRNAs, whose expression and evolutionary conservation are typically less pronounced relative to the snoRNAs that are currently cataloged. We further find that virtually all C/D box snoRNAs are specifically processed inside the regions of terminal complementarity, retaining in the mature form only 4-5 nucleotides upstream of the C box and 2-5 nucleotides downstream of the D box. Sequencing of the total and Argonaute 2-associated populations of small RNAs reveals that despite their cellular abundance, C/D box-derived small RNAs are not efficiently incorporated into the Ago2 protein. CONCLUSIONS: We conclude that the human genome encodes a large number of snoRNAs that are processed along the canonical pathway and expressed at relatively low levels. Generation of snoRNA-derived processing products with alternative, particularly miRNA-like, functions appears to be uncommon.
LinkOut: [PMID: 23706177]
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CLIP-seq Support 1 for dataset GSM1067870 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293/HeLa / Ago2 IP-seq (mitotic cells) |
Location of target site | ENST00000318711.7 | 3UTR | AAGAAUGCUUGUGAUUUUUGCACAUUGAUUUUGUAUC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23706177 / GSE43666 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
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MiRNA-Target Expression Profile (TCGA) | |||||||
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83 hsa-miR-4457 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT098032 | SOBP | sine oculis binding protein homolog | ![]() |
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2 | 2 | ||||||
MIRT202580 | PCMTD2 | protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2 | ![]() |
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2 | 6 | ||||||
MIRT247137 | WEE1 | WEE1 G2 checkpoint kinase | ![]() |
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2 | 4 | ||||||
MIRT349266 | PTBP1 | polypyrimidine tract binding protein 1 | ![]() |
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2 | 2 | ||||||
MIRT363756 | EIF4EBP1 | eukaryotic translation initiation factor 4E binding protein 1 | ![]() |
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2 | 2 | ||||||
MIRT443586 | FAM84B | family with sequence similarity 84 member B | ![]() |
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2 | 2 | ||||||
MIRT452333 | EIF5AL1 | eukaryotic translation initiation factor 5A-like 1 | ![]() |
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2 | 2 | ||||||
MIRT453864 | ZBTB40 | zinc finger and BTB domain containing 40 | ![]() |
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2 | 4 | ||||||
MIRT471486 | PDE4D | phosphodiesterase 4D | ![]() |
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2 | 4 | ||||||
MIRT476290 | GMFB | glia maturation factor beta | ![]() |
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2 | 8 | ||||||
MIRT479897 | CCDC117 | coiled-coil domain containing 117 | ![]() |
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2 | 4 | ||||||
MIRT484251 | ANK1 | ankyrin 1 | ![]() |
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2 | 2 | ||||||
MIRT491473 | TMEM214 | transmembrane protein 214 | ![]() |
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2 | 2 | ||||||
MIRT493804 | GAN | gigaxonin | ![]() |
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2 | 6 | ||||||
MIRT499252 | VAV3 | vav guanine nucleotide exchange factor 3 | ![]() |
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2 | 4 | ||||||
MIRT502271 | HNRNPA1 | heterogeneous nuclear ribonucleoprotein A1 | ![]() |
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2 | 4 | ||||||
MIRT504651 | RPL9 | ribosomal protein L9 | ![]() |
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2 | 6 | ||||||
MIRT505211 | UBN2 | ubinuclein 2 | ![]() |
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2 | 8 | ||||||
MIRT508952 | SNRPB | small nuclear ribonucleoprotein polypeptides B and B1 | ![]() |
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2 | 4 | ||||||
MIRT512691 | POP1 | POP1 homolog, ribonuclease P/MRP subunit | ![]() |
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2 | 2 | ||||||
MIRT513320 | SCUBE3 | signal peptide, CUB domain and EGF like domain containing 3 | ![]() |
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2 | 2 | ||||||
MIRT513870 | HOXA5 | homeobox A5 | ![]() |
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2 | 2 | ||||||
MIRT517342 | ZNF529 | zinc finger protein 529 | ![]() |
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2 | 4 | ||||||
MIRT518947 | LSG1 | large 60S subunit nuclear export GTPase 1 | ![]() |
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2 | 2 | ||||||
MIRT520867 | SUGT1 | SGT1 homolog, MIS12 kinetochore complex assembly cochaperone | ![]() |
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2 | 2 | ||||||
MIRT528325 | GIGYF2 | GRB10 interacting GYF protein 2 | ![]() |
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2 | 2 | ||||||
MIRT531990 | SLCO1B3 | solute carrier organic anion transporter family member 1B3 | ![]() |
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2 | 2 | ||||||
MIRT533298 | USP46 | ubiquitin specific peptidase 46 | ![]() |
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2 | 2 | ||||||
MIRT545257 | TRIM36 | tripartite motif containing 36 | ![]() |
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2 | 4 | ||||||
MIRT547038 | POGZ | pogo transposable element derived with ZNF domain | ![]() |
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2 | 2 | ||||||
MIRT556103 | MOAP1 | modulator of apoptosis 1 | ![]() |
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2 | 2 | ||||||
MIRT558321 | DR1 | down-regulator of transcription 1 | ![]() |
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2 | 2 | ||||||
MIRT558521 | CSRNP3 | cysteine and serine rich nuclear protein 3 | ![]() |
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2 | 2 | ||||||
MIRT560906 | TMED10 | transmembrane p24 trafficking protein 10 | ![]() |
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2 | 2 | ||||||
MIRT568448 | ARPP19 | cAMP regulated phosphoprotein 19 | ![]() |
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2 | 2 | ||||||
MIRT570586 | OTUD7B | OTU deubiquitinase 7B | ![]() |
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2 | 2 | ||||||
MIRT572799 | SIGLEC14 | sialic acid binding Ig like lectin 14 | ![]() |
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2 | 2 | ||||||
MIRT573863 | C9orf78 | chromosome 9 open reading frame 78 | ![]() |
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2 | 2 | ||||||
MIRT575058 | P2ry1 | purinergic receptor P2Y, G-protein coupled 1 | ![]() |
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2 | 5 | ||||||
MIRT609931 | SLC38A1 | solute carrier family 38 member 1 | ![]() |
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2 | 4 | ||||||
MIRT610836 | ZNF585A | zinc finger protein 585A | ![]() |
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2 | 4 | ||||||
MIRT611474 | P2RY1 | purinergic receptor P2Y1 | ![]() |
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2 | 7 | ||||||
MIRT613569 | YY2 | YY2 transcription factor | ![]() |
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2 | 2 | ||||||
MIRT618626 | GREB1 | growth regulation by estrogen in breast cancer 1 | ![]() |
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2 | 2 | ||||||
MIRT620606 | SAP30 | Sin3A associated protein 30 | ![]() |
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2 | 2 | ||||||
MIRT621017 | CLSTN3 | calsyntenin 3 | ![]() |
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2 | 4 | ||||||
MIRT635314 | FAM179A | TOG array regulator of axonemal microtubules 2 | ![]() |
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2 | 2 | ||||||
MIRT635919 | GLTSCR2 | NOP53 ribosome biogenesis factor | ![]() |
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2 | 2 | ||||||
MIRT640598 | TM9SF4 | transmembrane 9 superfamily member 4 | ![]() |
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2 | 2 | ||||||
MIRT641784 | YWHAB | tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta | ![]() |
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2 | 4 | ||||||
MIRT644067 | IQCE | IQ motif containing E | ![]() |
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2 | 2 | ||||||
MIRT648288 | TRAPPC2L | trafficking protein particle complex 2 like | ![]() |
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2 | 2 | ||||||
MIRT658085 | FOXR2 | forkhead box R2 | ![]() |
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2 | 2 | ||||||
MIRT659077 | DEPTOR | DEP domain containing MTOR interacting protein | ![]() |
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2 | 2 | ||||||
MIRT665307 | ZBTB37 | zinc finger and BTB domain containing 37 | ![]() |
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2 | 2 | ||||||
MIRT665975 | SYTL4 | synaptotagmin like 4 | ![]() |
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2 | 2 | ||||||
MIRT666302 | SLC25A25 | solute carrier family 25 member 25 | ![]() |
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2 | 2 | ||||||
MIRT674906 | RASSF9 | Ras association domain family member 9 | ![]() |
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2 | 2 | ||||||
MIRT680086 | THAP1 | THAP domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT681488 | DIP2A | disco interacting protein 2 homolog A | ![]() |
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2 | 2 | ||||||
MIRT691244 | DFNB59 | pejvakin | ![]() |
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2 | 2 | ||||||
MIRT692362 | AGTRAP | angiotensin II receptor associated protein | ![]() |
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2 | 2 | ||||||
MIRT693035 | MB21D1 | Mab-21 domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT693837 | STAT5A | signal transducer and activator of transcription 5A | ![]() |
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2 | 2 | ||||||
MIRT694479 | LRTOMT | leucine rich transmembrane and O-methyltransferase domain containing | ![]() |
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2 | 2 | ||||||
MIRT696070 | ZNF264 | zinc finger protein 264 | ![]() |
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2 | 2 | ||||||
MIRT696578 | TTC21B | tetratricopeptide repeat domain 21B | ![]() |
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2 | 2 | ||||||
MIRT696760 | MTFMT | mitochondrial methionyl-tRNA formyltransferase | ![]() |
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2 | 2 | ||||||
MIRT697307 | ZNF652 | zinc finger protein 652 | ![]() |
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2 | 2 | ||||||
MIRT700152 | RNF115 | ring finger protein 115 | ![]() |
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2 | 2 | ||||||
MIRT701056 | PARP2 | poly(ADP-ribose) polymerase 2 | ![]() |
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2 | 2 | ||||||
MIRT701198 | OTUD3 | OTU deubiquitinase 3 | ![]() |
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2 | 2 | ||||||
MIRT701335 | NSD1 | nuclear receptor binding SET domain protein 1 | ![]() |
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2 | 2 | ||||||
MIRT702656 | ITGA3 | integrin subunit alpha 3 | ![]() |
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2 | 2 | ||||||
MIRT703618 | FBXO45 | F-box protein 45 | ![]() |
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2 | 2 | ||||||
MIRT704673 | CHTOP | chromatin target of PRMT1 | ![]() |
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2 | 2 | ||||||
MIRT708894 | ZNF780A | zinc finger protein 780A | ![]() |
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2 | 2 | ||||||
MIRT711620 | DGKH | diacylglycerol kinase eta | ![]() |
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2 | 2 | ||||||
MIRT713745 | TMEM81 | transmembrane protein 81 | ![]() |
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2 | 2 | ||||||
MIRT719712 | CD101 | CD101 molecule | ![]() |
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2 | 2 | ||||||
MIRT720294 | DLGAP3 | DLG associated protein 3 | ![]() |
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2 | 2 | ||||||
MIRT722606 | CCDC152 | coiled-coil domain containing 152 | ![]() |
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2 | 2 | ||||||
MIRT724566 | ACSBG1 | acyl-CoA synthetase bubblegum family member 1 | ![]() |
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2 | 2 |
miRNA-Drug Associations | ||||||||||||||||||
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miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||
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